Genetic diversity in - chilli (Capsicum annuum L.) based on microsatellite markers: An evaluation of Bangladeshi germplasm


  • Md. Rezwan MOLLA Bangladesh Agricultural Research Institute
  • Iftekhar AHMED Bangladesh Agricultural Research Institute
  • Md. Motiar ROHMAN Bangladesh Agricultural Research Institute
  • Mohammad Amdadul HAQUE Bangladesh Agricultural Research Institute
  • Shah Md. Monir HOSSAIN Bangladesh Agricultural Research Council
  • Lutful HASSAN Bangladesh Agricultural University



chilli, genetic diversity, microsatellite (SSR) markers, polymorphism information content


Genetic diversity analysis is a pre-requisite to develop improve variety of any crop. Hence, 39 SSR markers were used to analyze the genetic diversity of local chilli cultivars. PCR-amplified microsatellite loci were shown to be polymorphic in all investigated cultivars. The locus, CAMS-647 produced the highest number of alleles (8) ranging in size from 188 to 279 bp. PIC values for 39 primers ranged from 0.099 for the locus Hpms 1-165 to 0.806 for the locus CAMS-679. All of the SSRs examined were informative in characterizing the genotypic variance of the samples while 12 were more informative with higher PIC values (> 0.6). There was a wide range of genetic diversity varied from 0.117 (HpmsE075) to 0.806 (CAMS-647), whereas the highest (1.713) and the lowest (0.205) value of Shannon’s Information Index was registered in the locus CAMS-679 and Hpms 1-165, respectively. There was a higher degree of genetic differentiation (0.927) and a lower amount of gene flow (0.010). Nei’s genetic distance (GD) varied from 0.100 to 0.990. Among 96 cultivars, 55 had distinct status in the dendrogram with higher GD values (> 0.6), while 41 cultivars showed a close relationship and yielded lower GD values.

Author Biographies

Md. Rezwan MOLLA, Bangladesh Agricultural Research Institute

Plant Genetic Resources Centre and Senior Scientific Officer

Iftekhar AHMED, Bangladesh Agricultural Research Institute

Plant Genetic Resources Centre and Senior Scientific Officer

Md. Motiar ROHMAN, Bangladesh Agricultural Research Institute

Plant Breeding Division and Senior Scientific Officer

Mohammad Amdadul HAQUE, Bangladesh Agricultural Research Institute

Pomology division and Senior Scientific Officer

Shah Md. Monir HOSSAIN, Bangladesh Agricultural Research Council

Crops Division and Senior Scientific Officer

Lutful HASSAN, Bangladesh Agricultural University

Department of Genetics and Plant Breeding and Professor


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How to Cite

MOLLA, M. R., AHMED, I., ROHMAN, M. M., HAQUE, M. A., HOSSAIN, S. M. M., & HASSAN, L. (2022). Genetic diversity in - chilli (Capsicum annuum L.) based on microsatellite markers: An evaluation of Bangladeshi germplasm. Acta Agriculturae Slovenica, 118(4), 1–20.



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